BUG: Warning: the following output files of rule get_genome_support_files were not present when the DAG was created:

[Maarten-vd-Sande]

Describe the bug
Seems like genomepy automatically makes the .fa.sizes file? @siebrenf is this likely? I can test somewhere these days with the --until flag

[siebrenf]

yes, it does in get_genome_support_files, which calls this script.

[Maarten-vd-Sande]

Ah yes, sorry unclear from my part. But I think the get_genome rule already makes this file, because when the get_genome_support_files rule starts, it prints a warning that the .fa.sizes already exists.

[siebrenf]

it should! I made this into a separate rule in case you already have the genome fasta or extend it.

We could leave the warning, or implement a silly fix: remove these files at the end of the get_genome script. Solution would cost <30 sec, so its not too bad.

[Maarten-vd-Sande]

I think the cleanest way is to have it as output of both, and set a ruleorder (maybe not even necessary). Not entirely sure if that's possible though 🤔

I don't like keeping the warning, because it can put people on the wrong foot. Removing the file is also ok, but indeed a bit mehh. But I prefer this over doing nothing